Reviewed, UniProtKB/Swiss-Prot Q88DK2 (PUR2_PSEPK)

Names and origin

Protein names

Recommended name:
    Phosphoribosylamine--glycine ligase
    EC=6.3.4.13
Alternative name(s):
    GARS
    Glycinamide ribonucleotide synthetase
    Phosphoribosylglycinamide synthetase

Gene names

Name:	purD
Ordered Locus Names:	PP_4823

Organism

Pseudomonas putida (strain KT2440) [Complete proteome] [HAMAP]

Taxonomic identifier

160488 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Pseudomonadales › Pseudomonadaceae › Pseudomonas

Protein attributes

Sequence length	431 AA.
Sequence status	Complete.
Protein existence	Inferred from homology.

General annotation (Comments)

Catalytic activity	ATP + 5-phospho-D-ribosylamine + glycine = ADP + phosphate + N(1)-(5-phospho-D-ribosyl)glycinamide. HAMAP MF_00138
Cofactor	Binds 1 magnesium or manganese ion per subunit By similarity. HAMAP MF_00138
Pathway	Purine metabolism; IMP biosynthesis via de novo pathway; N(1)-(5-phospho-D-ribosyl)glycinamide from 5-phospho-alpha-D-ribose 1-diphosphate: step 2/2. HAMAP MF_00138
Sequence similarities	Belongs to the GARS family. Contains 1 ATP-grasp domain.

Ontologies

Keywords
Biological process	Purine biosynthesis
Ligand	ATP-binding Magnesium Manganese Metal-binding Nucleotide-binding
Molecular function	Ligase
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	purine base biosynthetic process Inferred from electronic annotation. Source: InterPro purine nucleotide biosynthetic process Inferred from electronic annotation. Source: HAMAP
Molecular function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW magnesium ion binding Inferred from electronic annotation. Source: UniProtKB-KW manganese ion binding Inferred from electronic annotation. Source: UniProtKB-KW phosphoribosylamine-glycine ligase activity Inferred from electronic annotation. Source: HAMAP
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 431	431	Phosphoribosylamine--glycine ligase HAMAP MF_00138		PRO_0000151470
Regions
	Domain	108 – 315	208	ATP-grasp
	Nucleotide binding	134 – 195	62	ATP By similarity
Sites
	Metal binding	285	1	Magnesium or manganese By similarity
	Metal binding	287	1	Magnesium or manganese By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q88DK2-1 [UniParc]. Last modified June 1, 2003. Version 1. Checksum: 0F55678D9CB72F51	FASTA	431	45,837
	10 20 30 40 50 60 MKVLIIGSGG REHALAWKVA QDPRVEKVFV APGNAGTAIE AKCENVAIDV CALEQLADFA 70 80 90 100 110 120 EKNVDLTIVG PEAPLVIGVV DLFRSRGLDC FGPTKGAAQL EGSKAFTKDF LARHEIPTAD 130 140 150 160 170 180 YQNFTEIEPA LAYLQEKGAP IVIKADGLAA GKGVIVAMTL EEAEAAVRDM LAGNAFGEAG 190 200 210 220 230 240 SRVVIEEFLD GEEASFIVMV DGHNVLPMAT SQDHKRVGDQ DTGPNTGGMG AYSPAPVVTA 250 260 270 280 290 300 DVHQRVMDQV IWPTVRGMAE EGNVYTGFLY AGLMIDKAGN PKVIEFNCRF GDPETQPVML 310 320 330 340 350 360 RLESSLVLLV EAAFAKALDK VEAQWDPRPS LGVVLAAGGY PGDYAKGDVI NGLDAAAKIE 370 380 390 400 410 420 GKVFHAGTAL KDGKVTTNGG RVLCATAMGS TVADAQQQAY RLAKEVSWNG SFYRSDIGYR 430 AIARERGEHQ Q

References

[1]

"Complete genome sequence and comparative analysis of the metabolically versatile Pseudomonas putida KT2440." Nelson K.E., Weinel C., Paulsen I.T., Dodson R.J., Hilbert H., Martins dos Santos V.A.P., Fouts D.E., Gill S.R., Pop M., Holmes M., Brinkac L.M., Beanan M.J., DeBoy R.T., Daugherty S.C., Kolonay J.F., Madupu R., Nelson W.C., White O. , Peterson J.D., Khouri H.M., Hance I., Chris Lee P., Holtzapple E.K., Scanlan D., Tran K., Moazzez A., Utterback T.R., Rizzo M., Lee K., Kosack D., Moestl D., Wedler H., Lauber J., Stjepandic D., Hoheisel J., Straetz M., Heim S., Kiewitz C., Eisen J.A., Timmis K.N., Duesterhoeft A., Tuemmler B., Fraser C.M. Environ. Microbiol. 4:799-808(2002) [PubMed: 12534463] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Cross-references

Sequence databases
EMBL GenBank DDBJ	AE015451 Genomic DNA. Translation: AAN70392.1.
RefSeq	NP_746928.1.
3D structure databases
SMR	Q88DK2. Positions 1-424.
ModBase	Search...
Protein-protein interaction databases
STRING	Q88DK2.
Genome annotation databases
GeneID	1043159.
GenomeReviews	Gene locus PP_4823 in contig AE015451_GR.
KEGG	ppu:PP_4823.
NMPDR	fig|160488.1.peg.4758.
TIGR	PP_4823.
Phylogenomic databases
eggNOG	COG0151.
HOGENOM	HBG404060.
OMA	FSLMAFV.
PhylomeDB	Q88DK2.
Family and domain databases
HAMAP	MF_00138. GARS. [Tree]
InterPro	IPR011761. ATP-grasp. IPR013815. ATP_grasp_subdomain_1. IPR013816. ATP_grasp_subdomain_2. IPR013817. Pre-ATP_grasp. IPR016185. PreATP-grasp-like. IPR020561. PRibGlycinamid_synth_ATP-grasp. IPR000115. PRibGlycinamide_synth. IPR020560. PRibGlycinamide_synth_C-dom. IPR020559. PRibGlycinamide_synth_CS. IPR020562. PRibGlycinamide_synth_N-dom. IPR011054. Rudment_hybrid_motif. [Graphical view]
Gene3D	G3DSA:3.30.1490.20. ATP_grasp_subdomain_1. 1 hit. G3DSA:3.30.470.20. ATP_grasp_subdomain_2. 1 hit. G3DSA:3.90.600.10. Gars. 1 hit. G3DSA:3.40.50.20. Pre-ATP_grasp. 1 hit.
Pfam	PF01071. GARS_A. 1 hit. PF02843. GARS_C. 1 hit. PF02844. GARS_N. 1 hit. [Graphical view]
TIGRFAMs	TIGR00877. purD. 1 hit.
PROSITE	PS50975. ATP_GRASP. 1 hit. PS00184. GARS. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

PUR2_PSEPK

Accession

Primary (citable) accession number: Q88DK2

Entry history

Integrated into UniProtKB/Swiss-Prot:	October 24, 2003
Last sequence update:	June 1, 2003
Last modified:	February 9, 2010
This is version 52 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)